Hi,
1. If you use the "bank transfer" payment method via the menu System>Payment method, the customer will be able to see your bank details at the end of the checkout so that he can then perform the transfer, and adding the order number to the payment.
Then, when you receive it on your bank account, you'll see the order number and you'll be able to manually confirm the payment in the backend of the website.
2. You probably have that problem:
www.hikashop.com/forum/checkout/883603-4...-process.html#235445
Update to the latest version of HikaShop.